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This highlights shared evolutionary\nstructure while making conflicting signals immediately visible.\n\nPhylogenetic parallelogram\n\n## Features\n\n- Compare multiple rooted phylogenetic trees interactively\n- Compute and display phylogenetic parallelograms\n- Visualize dozens of trees simultaneously\n- Explore tree disagreement across loci or genomic regions\n- Interactive zooming, panning, and selection\n- Export high-quality figures for publication\n- Available for macOS, Windows, and Linux\n\n## Installation\n\nDownload the latest release from:\n\nhttps://github.com/husonlab/phylocompare/releases/latest\n\n### macOS\n\nDownload the installer matching your processor:\n\n- Apple Silicon (M1/M2/M3/...): macOS ARM64\n- Intel Macs: macOS Intel\n\nOpen the downloaded DMG file and drag PhyloCompare into the Applications folder.\n\n### Windows\n\nDownload and run the MSI installer.\n\n### Linux\n\nDownload either:\n\n- the Debian package (.deb)\n- or the portable archive (.tar.gz)\n\nThe portable archive can be unpacked and run without administrator privileges.\n\n## Getting Started\n\n1. Launch PhyloCompare.\n2. Open a file containing rooted phylogenetic trees.\n3. Select the trees to compare.\n4. Explore areas of agreement and disagreement among the trees.\n\n## Documentation\n\nThe complete user manual is available here:\n\n[User Manual](https://husonlab.github.io/phylocompare/manual.html)\n\n## Citation\n\nIf you use PhyloCompare in your research, please cite:\n\nDaniel H. Huson, Banu Cetinkaya and Louxin Zhang. PhyloCompare: visualizing agreement and conflict among trees as\nphylogenetic parallelograms. (Manuscript in preparation).\n\n## License\n\nPhyloCompare is distributed under the GNU General Public License v3 (GPL v3).\n\n## Contact\n\nDaniel H. Huson  \nUniversity of Tübingen  \nInstitute for Bioinformatics and Medical Informatics","project_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fhusonlab%2Fphylocompare","html_url":"https://awesome.ecosyste.ms/projects/github.com%2Fhusonlab%2Fphylocompare","lists_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fhusonlab%2Fphylocompare/lists"}